From: James Procter <j.procter@dundee.ac.uk>
Date: Thu, 8 Jun 2023 10:33:35 +0000 (+0100)
Subject: JAL-4196 report an error if structure view doesn’t get created (for whatever reason... 
X-Git-Tag: Release_2_11_3_0~13^2~7^2~2
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=dae873d07c9cba8be54c6c48b3da5e6116552a15;p=jalview.git

JAL-4196 report an error if structure view doesn’t get created (for whatever reason) during CLI arg processing, and wait around until the viewer has finished importing before doing anything
---

diff --git a/src/jalview/bin/Commands.java b/src/jalview/bin/Commands.java
index bcf231e..7f493e0 100644
--- a/src/jalview/bin/Commands.java
+++ b/src/jalview/bin/Commands.java
@@ -569,9 +569,20 @@ public class Commands
                           structureFilepath, tft, paeFilepath, false,
                           ssFromStructure, false, viewerType);
 
-          if (headless)
+          if (sv==null)
+          {
+            Console.error("Failed to import and open structure view.");
+            continue;
+          }
+          while (sv.isBusy())
           {
-            sv.setAsync(false);
+            try {
+              Thread.sleep(25);
+            }
+            catch (Exception x)
+            {
+              
+            }
           }
 
           String structureImageFilename = ArgParser.getValueFromSubValOrArg(